genome.fa.s2.2.7.7.80.10.50.1000.130.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  130  of  322  ( 38559 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42487100--42487150	22	2.3	22	86	6	68	23	0	31	45	1.53
42487963--42488022	15	4.1	15	79	10	61	20	0	41	38	1.52
42487969--42488031	22	2.9	22	80	7	74	20	0	44	34	1.52
42488088--42488124	15	2.6	14	91	4	56	21	0	29	48	1.50
42488059--42488129	7	9.9	7	72	6	61	23	0	25	50	1.49
42488124--42488172	14	3.4	15	77	8	57	20	0	40	38	1.53
42488360--42488413	16	3.8	16	70	27	57	38	9	3	48	1.53
42488529--42488561	16	2.1	16	94	5	59	27	0	0	72	0.85
42488618--42488828	115	1.8	113	83	6	273	30	13	21	33	1.92
42488620--42488863	114	2.1	115	79	5	271	31	15	20	31	1.94
42491020--42491072	24	2.2	24	96	0	97	43	3	3	49	1.38
42494432--42494460	14	2.1	14	93	6	51	34	0	10	55	1.34
42494837--42494881	21	2.1	21	91	0	72	37	13	44	4	1.64
42495149--42495311	43	3.8	43	83	0	191	26	17	25	29	1.98
42496689--42496731	18	2.4	19	80	11	54	41	9	2	46	1.48
42498097--42498735	132	4.8	130	77	4	402	27	19	18	34	1.95
42498259--42498747	135	3.7	132	76	6	355	26	20	18	34	1.95
42499268--42499357	43	2.1	43	91	0	144	30	26	17	25	1.98
42499449--42499473	13	1.9	13	100	0	50	32	16	24	28	1.96
42500729--42501088	179	2.0	179	97	0	684	36	17	19	26	1.94
42502999--42503050	19	2.7	19	79	5	52	17	7	0	75	1.03
42503377--42503409	3	11.0	3	100	0	66	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42507899--42507946	22	2.1	23	85	11	64	39	6	0	54	1.26
42509898--42509972	31	2.5	30	80	4	78	50	4	1	44	1.29
42510971--42511014	18	2.4	18	88	0	61	25	29	0	45	1.54
42515984--42516304	108	3.0	107	85	5	391	46	13	13	26	1.81
42515984--42516304	109	3.0	105	81	9	380	46	13	13	26	1.81
42517112--42517140	14	2.1	14	100	0	58	37	27	6	27	1.82
42520330--42520362	9	3.7	9	92	8	50	30	0	0	69	0.88
42526337--42526526	99	1.9	99	97	0	362	44	5	12	37	1.66
42527063--42527104	20	2.0	21	90	4	68	47	16	7	28	1.73
42536966--42537026	23	2.6	24	73	17	65	34	0	6	59	1.24
42537716--42537752	18	2.1	18	100	0	74	37	29	5	27	1.79
42540862--42540952	16	5.2	18	73	21	77	21	5	0	72	1.05
42540865--42540961	12	8.6	11	74	22	62	21	6	0	72	1.07
42540881--42540961	4	19.8	4	73	22	55	23	6	0	70	1.10
42540881--42540961	16	5.2	16	77	19	82	23	6	0	70	1.10
42542088--42542266	96	1.9	97	86	3	263	28	15	24	31	1.96
42542884--42542921	20	1.9	20	88	0	58	21	5	2	71	1.19
42549387--42549916	286	1.9	284	82	3	679	33	23	13	30	1.93
42563346--42563478	27	4.9	27	79	1	115	19	21	20	38	1.94
42564060--42564233	87	2.0	85	83	4	215	30	21	5	42	1.76
42573065--42573114	22	2.3	22	89	0	82	42	8	24	26	1.82
42574668--42574699	15	2.1	16	88	11	50	43	0	12	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42575764--42575804	12	3.1	14	76	16	52	31	0	0	68	0.90
42575822--42575971	30	5.0	30	100	0	300	56	10	3	30	1.48
42577015--42577041	8	3.4	8	100	0	54	74	11	0	14	1.08
42577651--42577685	15	2.3	15	85	0	52	42	0	0	57	0.99
42578640--42578679	2	20.0	2	100	0	80	0	50	0	50	1.00
42587990--42588683	44	15.5	44	72	9	359	32	17	21	28	1.96
42587986--42588721	89	8.2	88	77	6	559	32	17	20	29	1.96
42587988--42588326	133	2.5	133	82	1	392	32	18	21	28	1.97
42588647--42588744	44	2.2	44	83	0	124	31	17	25	25	1.97
42589835--42590811	94	10.4	94	80	3	981	32	18	20	28	1.96
42592336--42592384	4	12.2	4	83	16	66	20	0	4	75	0.96
42592336--42592381	12	3.8	12	88	11	76	19	0	4	76	0.96
42592336--42592384	24	2.0	24	100	0	98	20	0	4	75	0.96
42598717--42598773	29	1.9	29	85	3	78	24	3	22	49	1.66
42605096--42605259	35	4.7	35	78	4	145	32	10	23	33	1.88
42615276--42615381	55	1.9	55	90	3	169	44	23	5	26	1.75
42615924--42615976	18	2.8	19	94	5	99	52	0	0	47	1.00
42621190--42621279	45	2.0	44	97	2	171	53	6	12	27	1.63
42632900--42632961	27	2.3	27	88	0	88	56	6	16	20	1.62
42633816--42633873	25	2.3	25	100	0	116	37	18	3	39	1.68
42646732--42646761	14	2.1	15	93	6	53	13	10	13	63	1.52
42649806--42649983	27	6.6	27	83	3	205	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42649807--42649962	82	1.9	81	88	3	233	26	15	28	29	1.96
42649803--42649983	82	2.2	81	83	2	229	27	15	27	29	1.96
42657063--42657421	185	1.9	185	93	1	621	20	26	17	35	1.95
42660632--42660669	17	2.4	17	82	8	53	18	23	7	50	1.73
42662722--42662822	22	4.6	22	89	0	139	17	28	33	19	1.95
42665775--42665851	22	3.5	22	83	1	91	29	18	23	28	1.97
42665776--42665874	23	4.4	22	80	9	103	33	19	22	25	1.97
42665776--42665874	45	2.2	45	82	10	123	33	19	22	25	1.97
42672770--42672826	24	2.4	24	84	0	60	17	28	19	35	1.94
42677155--42677187	16	2.1	16	94	0	57	60	6	27	6	1.44
42687793--42688691	46	19.7	46	94	3	1597	21	21	28	28	1.99
42691613--42691683	15	4.7	15	78	5	81	11	19	12	56	1.66
42691604--42691683	30	2.6	31	81	11	94	11	18	15	55	1.69
42700396--42700433	19	2.0	20	85	15	53	39	23	0	36	1.55
42700708--42700876	47	3.6	47	80	10	220	27	28	20	23	1.99
42700662--42700925	93	2.8	93	93	0	438	28	28	20	23	1.99
42700657--42700922	46	5.7	46	77	11	265	28	27	20	23	1.99
42704083--42704258	46	3.8	46	76	5	194	22	20	28	28	1.98
42704080--42704250	93	1.8	93	91	2	281	22	21	28	28	1.99
42704873--42704918	21	2.2	21	100	0	92	45	13	13	28	1.80
42717393--42717436	23	2.0	22	86	4	61	43	6	2	47	1.42
42720698--42720833	23	6.0	23	79	11	147	35	19	22	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42720698--42720833	45	3.0	45	81	13	163	35	19	22	22	1.96
42721352--42721379	14	2.0	14	100	0	56	35	7	14	42	1.73
42723446--42723487	22	1.9	22	85	9	59	45	11	21	21	1.84
42726082--42726107	11	2.4	11	100	0	52	73	0	0	26	0.84
42734146--42734175	8	3.8	8	90	0	51	60	0	40	0	0.97
42742105--42742199	48	2.0	49	85	2	129	9	45	9	35	1.69
42749597--42749639	21	2.0	21	91	8	70	53	13	9	23	1.69
42750934--42751023	45	2.0	45	91	0	144	32	25	5	36	1.79
42766203--42766342	35	4.0	35	73	0	91	28	11	20	40	1.87
42768883--42768977	31	3.1	31	95	0	163	24	23	14	37	1.92
42769190--42769309	47	2.5	48	90	4	190	30	20	20	28	1.97
42769190--42769308	23	5.1	23	90	3	184	31	21	20	27	1.98
42769190--42769309	24	5.1	24	91	2	190	30	20	20	28	1.97
42769360--42769398	20	2.0	20	100	0	78	30	20	12	35	1.90
42769361--42769405	20	2.2	20	92	0	72	31	22	13	33	1.92
42769442--42769489	25	1.9	25	86	0	69	25	16	25	33	1.96
42781244--42781414	48	3.6	48	83	0	171	29	25	18	26	1.98
42785164--42785224	32	1.9	31	83	3	77	34	18	11	36	1.86
42785176--42785226	21	2.4	21	90	0	75	31	19	11	37	1.88
42785162--42785226	11	6.1	11	75	5	62	32	16	13	36	1.89
42790599--42790774	28	6.3	28	89	2	230	32	28	13	26	1.93
42793447--42793630	92	2.0	92	100	0	368	27	27	11	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42793916--42794066	76	2.0	76	96	0	275	35	22	25	16	1.95
42794511--42794688	27	6.6	27	80	3	160	28	29	15	26	1.96
42794532--42794687	82	1.9	81	85	3	215	27	29	16	26	1.96
42800591--42800650	23	2.6	23	94	0	102	21	20	36	21	1.95
42801348--42801390	19	2.3	19	100	0	86	16	0	30	53	1.43
42801830--42801944	47	2.4	47	98	0	221	26	25	20	27	1.99
42801908--42802011	37	2.8	37	82	5	104	27	25	18	27	1.98
42808545--42808574	15	2.0	15	100	0	60	33	20	13	33	1.91
42810341--42810518	27	6.6	27	84	3	205	29	28	15	26	1.96
42810362--42810517	82	1.9	81	88	3	233	29	28	15	26	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322